Basic Information
VIS ID
TVIS30004354
Fusion event
HIV-LOC728989 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr1
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
146511006/147039449 (Hg38)
End
146511006/147039449 (Hg38)
Orient
-
Location type
ncRNA_intronic
Fragile sites / regions
FRA1F
Target gene
LOC728989
Nearest miRNA
hsa-mir-101-1/Upstream/1188804; hsa-mir-1182/Downstream/1295030;
Nearest TSS
ENST00000473358/Upstream/35831; ENST00000440377/Downstream/123061;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/100088, chr1-CpG: 31/Downstream/11207
Upstream sequence
GACATTAAGATCAGACTTTTAATTTATCCTTCTATCAATCTACTCTTGCTGGAGGTTGACAGAAGTAGGAGTGATTATTAACATAAACTGTAATCACTAT
Downstream sequence
GAGCCATTAGAAACCAAGAATCACCCGGAGCTGAATCTTAATAGCAGACTCAGAAGGCTTCTCTGGTCTATTAGTAGAATTAAGGAAAGATGTTCCCTAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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